{"id":"https://openalex.org/W2156563976","doi":"https://doi.org/10.1093/nar/gkl092","title":"Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee","display_name":"Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee","publication_year":2006,"publication_date":"2006-07-01","ids":{"openalex":"https://openalex.org/W2156563976","doi":"https://doi.org/10.1093/nar/gkl092","mag":"2156563976","pmid":"https://pubmed.ncbi.nlm.nih.gov/16845081"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkl092","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkl092","pdf_url":null,"source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/nar/gkl092","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5052723939","display_name":"Fabrice Armougom","orcid":"https://orcid.org/0000-0003-0294-4913"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210120427","display_name":"Institut de Biologie du D\u00e9veloppement Marseille","ror":"https://ror.org/02me5cy06","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I21491767","https://openalex.org/I4210096427","https://openalex.org/I4210120427"]},{"id":"https://openalex.org/I4210152516","display_name":"Institut de Biologie Structurale","ror":"https://ror.org/04szabx38","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I4210091409","https://openalex.org/I4210096427","https://openalex.org/I4210113668","https://openalex.org/I4210152516","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH","FR"],"is_corresponding":false,"raw_author_name":"F. Armougom","raw_affiliation_strings":["Laboratoire Information G\u00e9nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR- 13288, Marseille cedex 09, France","Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire Information G\u00e9nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR- 13288, Marseille cedex 09, France","institution_ids":["https://openalex.org/I4210120427","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]},{"raw_affiliation_string":"Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","institution_ids":["https://openalex.org/I4210152516","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039131441","display_name":"S\u00e9bastien Moretti","orcid":"https://orcid.org/0000-0003-3947-488X"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210152516","display_name":"Institut de Biologie Structurale","ror":"https://ror.org/04szabx38","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I4210091409","https://openalex.org/I4210096427","https://openalex.org/I4210113668","https://openalex.org/I4210152516","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH","FR"],"is_corresponding":false,"raw_author_name":"S. Moretti","raw_affiliation_strings":["Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]},{"raw_affiliation_string":"Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","institution_ids":["https://openalex.org/I4210152516","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076211143","display_name":"Olivier Poirot","orcid":"https://orcid.org/0000-0003-3570-7893"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210152516","display_name":"Institut de Biologie Structurale","ror":"https://ror.org/04szabx38","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I4210091409","https://openalex.org/I4210096427","https://openalex.org/I4210113668","https://openalex.org/I4210152516","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH","FR"],"is_corresponding":false,"raw_author_name":"O. Poirot","raw_affiliation_strings":["Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","institution_ids":["https://openalex.org/I4210152516","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003525592","display_name":"St\u00e9phane Audic","orcid":"https://orcid.org/0000-0001-6193-4374"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210152516","display_name":"Institut de Biologie Structurale","ror":"https://ror.org/04szabx38","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I4210091409","https://openalex.org/I4210096427","https://openalex.org/I4210113668","https://openalex.org/I4210152516","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH","FR"],"is_corresponding":false,"raw_author_name":"S. Audic","raw_affiliation_strings":["Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]},{"raw_affiliation_string":"Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","institution_ids":["https://openalex.org/I4210152516","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063753939","display_name":"Philippe Dumas","orcid":"https://orcid.org/0000-0001-9360-3844"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210152516","display_name":"Institut de Biologie Structurale","ror":"https://ror.org/04szabx38","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I4210091409","https://openalex.org/I4210096427","https://openalex.org/I4210113668","https://openalex.org/I4210152516","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH","FR"],"is_corresponding":false,"raw_author_name":"P. Dumas","raw_affiliation_strings":["Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]},{"raw_affiliation_string":"Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","institution_ids":["https://openalex.org/I4210152516","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057171603","display_name":"Basile Schaeli","orcid":null},"institutions":[{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"B. Schaeli","raw_affiliation_strings":["Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026511052","display_name":"Vladimir Keduas","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210152516","display_name":"Institut de Biologie Structurale","ror":"https://ror.org/04szabx38","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I4210091409","https://openalex.org/I4210096427","https://openalex.org/I4210113668","https://openalex.org/I4210152516","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH","FR"],"is_corresponding":false,"raw_author_name":"V. Keduas","raw_affiliation_strings":["Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","institution_ids":["https://openalex.org/I4210152516","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5058332830","display_name":"C\u00e9dric Notredame","orcid":"https://orcid.org/0000-0003-1461-0988"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210152516","display_name":"Institut de Biologie Structurale","ror":"https://ror.org/04szabx38","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I4210091409","https://openalex.org/I4210096427","https://openalex.org/I4210113668","https://openalex.org/I4210152516","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I5124864","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I5124864"]}],"countries":["CH","FR"],"is_corresponding":false,"raw_author_name":"C. Notredame","raw_affiliation_strings":["Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire Information Ge \u00b4nomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy, 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France and","institution_ids":["https://openalex.org/I4210152516","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Laboratoire de syste `mes pe \u00b4riphe \u00b4riques, Ecole Polytechnique Fe \u00b4de \u00b4rale de Lausanne, CH 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I5124864"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":8.4551,"has_fulltext":false,"cited_by_count":518,"citation_normalized_percentile":{"value":0.98489926,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"34","issue":"Web Server","first_page":"W604","last_page":"W608"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9940999746322632,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9940999746322632,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10252","display_name":"Microbial Natural Products and Biosynthesis","score":0.9674999713897705,"subfield":{"id":"https://openalex.org/subfields/2736","display_name":"Pharmacology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9373999834060669,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7005834579467773},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.6962584853172302},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6764742136001587},{"id":"https://openalex.org/keywords/structural-alignment","display_name":"Structural alignment","score":0.6683714389801025},{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.5779962539672852},{"id":"https://openalex.org/keywords/alignment-free-sequence-analysis","display_name":"Alignment-free sequence analysis","score":0.5725115537643433},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.5715442895889282},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank (RCSB PDB)","score":0.5001935958862305},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.436051607131958},{"id":"https://openalex.org/keywords/upload","display_name":"Upload","score":0.43495485186576843},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.42492741346359253},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.41234761476516724},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.32558587193489075},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21999859809875488},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.2025735080242157},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.17080479860305786},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1285020411014557},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.07056254148483276}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7005834579467773},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.6962584853172302},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6764742136001587},{"id":"https://openalex.org/C4668613","wikidata":"https://www.wikidata.org/wiki/Q4116110","display_name":"Structural alignment","level":5,"score":0.6683714389801025},{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.5779962539672852},{"id":"https://openalex.org/C180384323","wikidata":"https://www.wikidata.org/wiki/Q16335137","display_name":"Alignment-free sequence analysis","level":5,"score":0.5725115537643433},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.5715442895889282},{"id":"https://openalex.org/C65556437","wikidata":"https://www.wikidata.org/wiki/Q766195","display_name":"Protein Data Bank (RCSB PDB)","level":2,"score":0.5001935958862305},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.436051607131958},{"id":"https://openalex.org/C71901391","wikidata":"https://www.wikidata.org/wiki/Q7126699","display_name":"Upload","level":2,"score":0.43495485186576843},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.42492741346359253},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.41234761476516724},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.32558587193489075},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21999859809875488},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.2025735080242157},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.17080479860305786},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1285020411014557},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.07056254148483276},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1093/nar/gkl092","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkl092","pdf_url":null,"source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:16845081","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16845081","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:doc.rero.ch:302481","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400148","display_name":"reroDoc Digital Library","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":""},{"id":"pmh:oai:europepmc.org:338411","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC1538866","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:infoscience.epfl.ch:269326","is_oa":true,"landing_page_url":"https://infoscience.epfl.ch/handle/20.500.14299/160185","pdf_url":null,"source":{"id":"https://openalex.org/S4306400487","display_name":"Infoscience (Ecole Polytechnique F\u00e9d\u00e9rale de Lausanne)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"research article"},{"id":"pmh:oai:pubmedcentral.nih.gov:1538866","is_oa":true,"landing_page_url":"http://doi.org/10.1093/nar/gkl092","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkl092","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkl092","pdf_url":null,"source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320307781","display_name":"Sanofi","ror":"https://ror.org/027vj4x92"},{"id":"https://openalex.org/F4320320915","display_name":"\u00c9cole Polytechnique F\u00e9d\u00e9rale de Lausanne","ror":"https://ror.org/02s376052"},{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":20,"referenced_works":["https://openalex.org/W1968294149","https://openalex.org/W1979147581","https://openalex.org/W2001573278","https://openalex.org/W2004228538","https://openalex.org/W2015399150","https://openalex.org/W2023790301","https://openalex.org/W2028002258","https://openalex.org/W2047877386","https://openalex.org/W2077235131","https://openalex.org/W2099254366","https://openalex.org/W2102502076","https://openalex.org/W2104975318","https://openalex.org/W2127122014","https://openalex.org/W2137146016","https://openalex.org/W2138113666","https://openalex.org/W2139755116","https://openalex.org/W2144362290","https://openalex.org/W2166744107","https://openalex.org/W2187406058","https://openalex.org/W4244252686"],"related_works":["https://openalex.org/W2051969447","https://openalex.org/W2029514038","https://openalex.org/W2111937814","https://openalex.org/W2141411672","https://openalex.org/W1482324242","https://openalex.org/W2468116983","https://openalex.org/W2088487249","https://openalex.org/W187239587","https://openalex.org/W2158700816","https://openalex.org/W2133116680"],"abstract_inverted_index":{"Expresso":[0,109],"is":[1,62,107,121],"a":[2,63],"multiple":[3,64],"sequence":[4,52,65,111],"alignment":[5,45,53,66],"server":[6,21,120],"that":[7],"aligns":[8],"sequences":[9,30,49,70],"using":[10,50],"structural":[11,74,105],"information.":[12],"The":[13,20,59,119],"user":[14],"only":[15],"needs":[16],"to":[17,24,42,85,98],"provide":[18],"sequences.":[19],"runs":[22],"BLAST":[23],"identify":[25],"close":[26],"homologues":[27],"of":[28,46,67,76],"the":[29,32,44,47,68,73,77,103],"within":[31],"PDB":[33,36,93],"database.":[34],"These":[35],"structures":[37,89],"are":[38],"used":[39,97],"as":[40],"templates":[41,94],"guide":[43],"original":[48,69],"structure-based":[51,117],"methods":[54],"like":[55],"SAP":[56],"or":[57,90],"Fugue.":[58],"final":[60],"result":[61],"based":[71],"on":[72,123],"information":[75,106],"templates.":[78],"An":[79],"advanced":[80],"mode":[81],"makes":[82],"it":[83],"possible":[84],"either":[86],"upload":[87],"private":[88],"specify":[91],"which":[92],"should":[95],"be":[96],"model":[99],"each":[100],"sequence.":[101],"Providing":[102],"suitable":[104],"available,":[108],"delivers":[110],"alignments":[112],"with":[113,116],"accuracy":[114],"comparable":[115],"alignments.":[118],"available":[122],"http://www.tcoffee.org/.":[124]},"counts_by_year":[{"year":2026,"cited_by_count":7},{"year":2025,"cited_by_count":18},{"year":2024,"cited_by_count":16},{"year":2023,"cited_by_count":17},{"year":2022,"cited_by_count":33},{"year":2021,"cited_by_count":34},{"year":2020,"cited_by_count":33},{"year":2019,"cited_by_count":37},{"year":2018,"cited_by_count":27},{"year":2017,"cited_by_count":33},{"year":2016,"cited_by_count":25},{"year":2015,"cited_by_count":32},{"year":2014,"cited_by_count":29},{"year":2013,"cited_by_count":26},{"year":2012,"cited_by_count":22}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
